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add csv and parquet support to the readme generator (#458) #441

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add csv and parquet support to the readme generator (#458)

add csv and parquet support to the readme generator (#458) #441

Run time

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Job Run time
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59s
build (datasets/loaders/openproblems_v1_multimodal, /home/runner/work/openproblems-v2/openproblem...
12m 16s
build (datasets/loaders/cellxgene_census, /home/runner/work/openproblems-v2/openproblems-v2/src/d...
4m 10s
build (datasets/loaders/openproblems_neurips2022_pbmc, /home/runner/work/openproblems-v2/openprob...
2m 22s
build (datasets/loaders/cellxgene_census_from_source_h5ad, /home/runner/work/openproblems-v2/open...
3m 12s
build (datasets/loaders/openproblems_neurips2021_bmmc, /home/runner/work/openproblems-v2/openprob...
1m 25s
build (datasets/loaders/openproblems_v1, /home/runner/work/openproblems-v2/openproblems-v2/src/da...
12m 38s
build (datasets/processors/subsample, /home/runner/work/openproblems-v2/openproblems-v2/src/datas...
1m 44s
build (datasets/processors/hvg, /home/runner/work/openproblems-v2/openproblems-v2/src/datasets/pr...
2m 13s
build (datasets/processors/knn, /home/runner/work/openproblems-v2/openproblems-v2/src/datasets/pr...
1m 18s
build (datasets/processors/svd, /home/runner/work/openproblems-v2/openproblems-v2/src/datasets/pr...
2m 14s
build (datasets/processors/pca, /home/runner/work/openproblems-v2/openproblems-v2/src/datasets/pr...
1m 3s
build (datasets/normalization/l1_sqrt, /home/runner/work/openproblems-v2/openproblems-v2/src/data...
2m 38s
build (datasets/normalization/prot_clr, /home/runner/work/openproblems-v2/openproblems-v2/src/dat...
2m 32s
build (datasets/normalization/atac_tfidf, /home/runner/work/openproblems-v2/openproblems-v2/src/d...
2m 21s
build (datasets/normalization/sqrt_cp, /home/runner/work/openproblems-v2/openproblems-v2/src/data...
1m 8s
build (datasets/normalization/log_scran_pooling, /home/runner/work/openproblems-v2/openproblems-v...
1m 51s
build (datasets/normalization/log_cp, /home/runner/work/openproblems-v2/openproblems-v2/src/datas...
1m 3s
build (spatial_decomposition/methods/tangram, /home/runner/work/openproblems-v2/openproblems-v2/s...
9m 44s
build (spatial_decomposition/methods/rctd, /home/runner/work/openproblems-v2/openproblems-v2/src/...
34m 6s
build (spatial_decomposition/methods/destvi, /home/runner/work/openproblems-v2/openproblems-v2/sr...
9m 29s
build (spatial_decomposition/methods/stereoscope, /home/runner/work/openproblems-v2/openproblems-...
11m 14s
build (spatial_decomposition/methods/seurat, /home/runner/work/openproblems-v2/openproblems-v2/sr...
2m 23s
build (spatial_decomposition/methods/vanillanmf, /home/runner/work/openproblems-v2/openproblems-v...
1m 55s
build (spatial_decomposition/methods/nnls, /home/runner/work/openproblems-v2/openproblems-v2/src/...
1m 49s
build (spatial_decomposition/methods/nmfreg, /home/runner/work/openproblems-v2/openproblems-v2/sr...
1m 45s
build (spatial_decomposition/methods/cell2location, /home/runner/work/openproblems-v2/openproblem...
11m 44s
build (spatial_decomposition/control_methods/random_proportions, /home/runner/work/openproblems-v...
3m 17s
build (spatial_decomposition/control_methods/true_proportions, /home/runner/work/openproblems-v2/...
2m 3s
build (spatial_decomposition/dataset_simulator, /home/runner/work/openproblems-v2/openproblems-v2...
1m 13s
build (spatial_decomposition/metrics/r2, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 3s
build (spatial_decomposition/process_dataset, /home/runner/work/openproblems-v2/openproblems-v2/s...
2m 37s
build (label_projection/methods/logistic_regression, /home/runner/work/openproblems-v2/openproble...
1m 12s
build (label_projection/methods/naive_bayes, /home/runner/work/openproblems-v2/openproblems-v2/sr...
1m 55s
build (label_projection/methods/scanvi, /home/runner/work/openproblems-v2/openproblems-v2/src/tas...
13m 27s
build (label_projection/methods/xgboost, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 43s
build (label_projection/methods/mlp, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/...
2m 20s
build (label_projection/methods/scanvi_scarches, /home/runner/work/openproblems-v2/openproblems-v...
11m 45s
build (label_projection/methods/knn, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/...
1m 25s
build (label_projection/control_methods/random_labels, /home/runner/work/openproblems-v2/openprob...
1m 3s
build (label_projection/control_methods/majority_vote, /home/runner/work/openproblems-v2/openprob...
1m 9s
build (label_projection/control_methods/true_labels, /home/runner/work/openproblems-v2/openproble...
1m 22s
build (label_projection/metrics/f1, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/l...
1m 24s
build (label_projection/metrics/accuracy, /home/runner/work/openproblems-v2/openproblems-v2/src/t...
2m 23s
build (label_projection/process_dataset, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 49s
build (match_modalities/methods/scot, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks...
13m 18s
build (match_modalities/methods/harmonic_alignment, /home/runner/work/openproblems-v2/openproblem...
2m 34s
build (match_modalities/methods/procrustes, /home/runner/work/openproblems-v2/openproblems-v2/src...
2m 21s
build (match_modalities/methods/fastmnn, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
2m 41s
build (match_modalities/control_methods/random_features, /home/runner/work/openproblems-v2/openpr...
1m 22s
build (match_modalities/control_methods/true_features, /home/runner/work/openproblems-v2/openprob...
1m 12s
build (match_modalities/metrics/knn_auc, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 10s
build (match_modalities/metrics/mse, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/...
2m 22s
build (match_modalities/process_dataset, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 49s
build (batch_integration/methods/scvi, /home/runner/work/openproblems-v2/openproblems-v2/src/task...
11m 51s
build (batch_integration/methods/fastmnn_embedding, /home/runner/work/openproblems-v2/openproblem...
2m 0s
build (batch_integration/methods/scalex_embed, /home/runner/work/openproblems-v2/openproblems-v2/...
10m 17s
build (batch_integration/methods/pyliger, /home/runner/work/openproblems-v2/openproblems-v2/src/t...
2m 24s
build (batch_integration/methods/scanvi, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
10m 16s
build (batch_integration/methods/scalex_feature, /home/runner/work/openproblems-v2/openproblems-v...
9m 37s
build (batch_integration/methods/fastmnn_feature, /home/runner/work/openproblems-v2/openproblems-...
2m 35s
build (batch_integration/methods/bbknn, /home/runner/work/openproblems-v2/openproblems-v2/src/tas...
1m 27s
build (batch_integration/methods/mnnpy, /home/runner/work/openproblems-v2/openproblems-v2/src/tas...
3m 22s
build (batch_integration/methods/scanorama_feature, /home/runner/work/openproblems-v2/openproblem...
1m 14s
build (batch_integration/methods/liger, /home/runner/work/openproblems-v2/openproblems-v2/src/tas...
3m 38s
build (batch_integration/methods/combat, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 57s
build (batch_integration/methods/mnn_correct, /home/runner/work/openproblems-v2/openproblems-v2/s...
1m 48s
build (batch_integration/methods/scanorama_embed, /home/runner/work/openproblems-v2/openproblems-...
1m 37s
build (batch_integration/control_methods/no_integration_batch, /home/runner/work/openproblems-v2/...
1m 58s
build (batch_integration/control_methods/random_embed_cell, /home/runner/work/openproblems-v2/ope...
1m 12s
build (batch_integration/control_methods/random_integration, /home/runner/work/openproblems-v2/op...
1m 17s
build (batch_integration/control_methods/random_embed_cell_jitter, /home/runner/work/openproblems...
1m 9s
build (batch_integration/transformers/feature_to_embed, /home/runner/work/openproblems-v2/openpro...
1m 12s
build (batch_integration/transformers/embed_to_graph, /home/runner/work/openproblems-v2/openprobl...
1m 15s
build (batch_integration/metrics/isolated_label_asw, /home/runner/work/openproblems-v2/openproble...
1m 20s
build (batch_integration/metrics/graph_connectivity, /home/runner/work/openproblems-v2/openproble...
1m 6s
build (batch_integration/metrics/asw_batch, /home/runner/work/openproblems-v2/openproblems-v2/src...
2m 3s
build (batch_integration/metrics/kbet, /home/runner/work/openproblems-v2/openproblems-v2/src/task...
3m 0s
build (batch_integration/metrics/pcr, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks...
2m 8s
build (batch_integration/metrics/cell_cycle_conservation, /home/runner/work/openproblems-v2/openp...
1m 10s
build (batch_integration/metrics/hvg_overlap, /home/runner/work/openproblems-v2/openproblems-v2/s...
3m 8s
build (batch_integration/metrics/asw_label, /home/runner/work/openproblems-v2/openproblems-v2/src...
2m 30s
build (batch_integration/metrics/isolated_label_f1, /home/runner/work/openproblems-v2/openproblem...
1m 18s
build (batch_integration/metrics/clustering_overlap, /home/runner/work/openproblems-v2/openproble...
1m 12s
build (batch_integration/process_dataset, /home/runner/work/openproblems-v2/openproblems-v2/src/t...
1m 12s
build (denoising/methods/magic, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/denoi...
1m 44s
build (denoising/methods/dca, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/denoisi...
2m 26s
build (denoising/methods/knn_smoothing, /home/runner/work/openproblems-v2/openproblems-v2/src/tas...
1m 57s
build (denoising/methods/alra, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/denois...
2m 24s
build (denoising/control_methods/perfect_denoising, /home/runner/work/openproblems-v2/openproblem...
2m 39s
build (denoising/control_methods/no_denoising, /home/runner/work/openproblems-v2/openproblems-v2/...
2m 16s
build (denoising/metrics/poisson, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/den...
1m 17s
build (denoising/metrics/mse, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/denoisi...
1m 21s
build (denoising/process_dataset, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/den...
1m 7s
build (predict_modality/methods/lmds_irlba_rf, /home/runner/work/openproblems-v2/openproblems-v2/...
1m 59s
build (predict_modality/methods/knnr_py, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 7s
build (predict_modality/methods/guanlab_dengkw_pm, /home/runner/work/openproblems-v2/openproblems...
1m 54s
build (predict_modality/methods/lm, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/p...
3m 1s
build (predict_modality/methods/knnr_r, /home/runner/work/openproblems-v2/openproblems-v2/src/tas...
2m 30s
build (predict_modality/control_methods/solution, /home/runner/work/openproblems-v2/openproblems-...
1m 0s
build (predict_modality/control_methods/random_predict, /home/runner/work/openproblems-v2/openpro...
59s
build (predict_modality/control_methods/zeros, /home/runner/work/openproblems-v2/openproblems-v2/...
1m 14s
build (predict_modality/control_methods/mean_per_gene, /home/runner/work/openproblems-v2/openprob...
2m 22s
build (predict_modality/metrics/correlation, /home/runner/work/openproblems-v2/openproblems-v2/sr...
1m 37s
build (predict_modality/metrics/mse, /home/runner/work/openproblems-v2/openproblems-v2/src/tasks/...
1m 15s
build (predict_modality/process_dataset, /home/runner/work/openproblems-v2/openproblems-v2/src/ta...
1m 9s
build (dimensionality_reduction/methods/tsne, /home/runner/work/openproblems-v2/openproblems-v2/s...
2m 11s
build (dimensionality_reduction/methods/diffusion_map, /home/runner/work/openproblems-v2/openprob...
1m 42s
build (dimensionality_reduction/methods/lmds, /home/runner/work/openproblems-v2/openproblems-v2/s...
2m 49s
build (dimensionality_reduction/methods/phate, /home/runner/work/openproblems-v2/openproblems-v2/...
2m 9s
build (dimensionality_reduction/methods/neuralee, /home/runner/work/openproblems-v2/openproblems-...
7m 24s
build (dimensionality_reduction/methods/pymde, /home/runner/work/openproblems-v2/openproblems-v2/...
9m 48s
build (dimensionality_reduction/methods/umap, /home/runner/work/openproblems-v2/openproblems-v2/s...
1m 9s
build (dimensionality_reduction/methods/pca, /home/runner/work/openproblems-v2/openproblems-v2/sr...
2m 39s
build (dimensionality_reduction/methods/simlr, /home/runner/work/openproblems-v2/openproblems-v2/...
1m 58s
build (dimensionality_reduction/methods/densmap, /home/runner/work/openproblems-v2/openproblems-v...
1m 9s
build (dimensionality_reduction/methods/ivis, /home/runner/work/openproblems-v2/openproblems-v2/s...
4m 48s
build (dimensionality_reduction/control_methods/random_features, /home/runner/work/openproblems-v...
1m 3s
build (dimensionality_reduction/control_methods/true_features, /home/runner/work/openproblems-v2/...
1m 13s
build (dimensionality_reduction/control_methods/spectral_features, /home/runner/work/openproblems...
2m 30s
build (dimensionality_reduction/metrics/trustworthiness, /home/runner/work/openproblems-v2/openpr...
2m 13s
build (dimensionality_reduction/metrics/density_preservation, /home/runner/work/openproblems-v2/o...
1m 37s
build (dimensionality_reduction/metrics/distance_correlation, /home/runner/work/openproblems-v2/o...
5m 6s
build (dimensionality_reduction/metrics/clustering_performance, /home/runner/work/openproblems-v2...
2m 21s
build (dimensionality_reduction/metrics/coranking, /home/runner/work/openproblems-v2/openproblems...
1m 18s
build (dimensionality_reduction/process_dataset, /home/runner/work/openproblems-v2/openproblems-v...
2m 13s
build (common/check_dataset_schema, /home/runner/work/openproblems-v2/openproblems-v2/src/common/...
1m 9s
build (common/extract_metadata, /home/runner/work/openproblems-v2/openproblems-v2/src/common/extr...
1m 1s
build (common/check_yaml_schema, /home/runner/work/openproblems-v2/openproblems-v2/src/common/che...
1m 32s
build (common/process_task_results/get_task_info, /home/runner/work/openproblems-v2/openproblems-...
1m 47s
build (common/process_task_results/get_method_info, /home/runner/work/openproblems-v2/openproblem...
1m 21s
build (common/process_task_results/get_metric_info, /home/runner/work/openproblems-v2/openproblem...
2m 27s
build (common/process_task_results/get_dataset_info, /home/runner/work/openproblems-v2/openproble...
2m 42s
build (common/process_task_results/yaml_to_json, /home/runner/work/openproblems-v2/openproblems-v...
1m 5s
build (common/process_task_results/get_results, /home/runner/work/openproblems-v2/openproblems-v2...
3m 45s
build (common/process_task_results/generate_qc, /home/runner/work/openproblems-v2/openproblems-v2...
1m 5s
build (common/sync_test_resources, /home/runner/work/openproblems-v2/openproblems-v2/src/common/s...
2m 20s
build (common/create_component, /home/runner/work/openproblems-v2/openproblems-v2/src/common/crea...
54s
build (common/decompress_gzip, /home/runner/work/openproblems-v2/openproblems-v2/src/common/decom...
45s
build (common/create_task_readme, /home/runner/work/openproblems-v2/openproblems-v2/src/common/cr...
3m 19s
build (migration/check_migration_status, /home/runner/work/openproblems-v2/openproblems-v2/src/mi...
1m 8s
build (migration/update_bibtex, /home/runner/work/openproblems-v2/openproblems-v2/src/migration/u...
2m 17s
build (migration/list_git_shas, /home/runner/work/openproblems-v2/openproblems-v2/src/migration/l...
1m 15s
7h 19m 58s