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Update gtfparse (#642) #752

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Update gtfparse (#642)

Update gtfparse (#642) #752

Triggered via push January 9, 2024 08:18
@DriesSchaumontDriesSchaumont
pushed 79e15ff
main
Status Cancelled
Total duration 4m 28s
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main-build.yml

on: push
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3m 24s
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92 errors
build (convert/from_10xmtx_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/convert/from_...
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build (convert/from_bdrhap_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/convert/from_...
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build (convert/from_bd_to_10x_molecular_barcode_tags, /home/runner/work/openpipeline/openpipeline...
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build (cluster/leiden, /home/runner/work/openpipeline/openpipeline/src/cluster/leiden/config.vsh....
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build (compression/tar_extract, /home/runner/work/openpipeline/openpipeline/src/compression/tar_e...
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build (convert/from_h5ad_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/convert/from_h5...
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build (convert/from_cellranger_multi_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/con...
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build (convert/from_10xh5_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/convert/from_1...
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build (filter/delimit_fraction, /home/runner/work/openpipeline/openpipeline/src/filter/delimit_fr...
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build (compression/compress_h5mu, /home/runner/work/openpipeline/openpipeline/src/compression/com...
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build (convert/from_h5mu_to_seurat, /home/runner/work/openpipeline/openpipeline/src/convert/from_...
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build (filter/do_filter, /home/runner/work/openpipeline/openpipeline/src/filter/do_filter/config....
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build (filter/remove_modality, /home/runner/work/openpipeline/openpipeline/src/filter/remove_moda...
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build (correction/cellbender_remove_background_v0_2, /home/runner/work/openpipeline/openpipeline/...
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build (filter/filter_with_counts, /home/runner/work/openpipeline/openpipeline/src/filter/filter_w...
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build (dataflow/concat, /home/runner/work/openpipeline/openpipeline/src/dataflow/concat/config.vs...
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build (annotate/popv, /home/runner/work/openpipeline/openpipeline/src/annotate/popv/config.vsh.ya...
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build (dataflow/merge, /home/runner/work/openpipeline/openpipeline/src/dataflow/merge/config.vsh....
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build (correction/cellbender_remove_background, /home/runner/work/openpipeline/openpipeline/src/c...
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build (dataflow/concatenate_h5mu, /home/runner/work/openpipeline/openpipeline/src/dataflow/concat...
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build (convert/from_h5mu_to_h5ad, /home/runner/work/openpipeline/openpipeline/src/convert/from_h5...
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build (dataflow/split_modalities, /home/runner/work/openpipeline/openpipeline/src/dataflow/split_...
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build (dimred/pca, /home/runner/work/openpipeline/openpipeline/src/dimred/pca/config.vsh.yaml, /h...
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build (demux/bcl2fastq, /home/runner/work/openpipeline/openpipeline/src/demux/bcl2fastq/config.vs...
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build (demux/bcl_convert, /home/runner/work/openpipeline/openpipeline/src/demux/bcl_convert/confi...
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build (demux/cellranger_mkfastq, /home/runner/work/openpipeline/openpipeline/src/demux/cellranger...
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build (download/download_file, /home/runner/work/openpipeline/openpipeline/src/download/download_...
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build (files/make_params, /home/runner/work/openpipeline/openpipeline/src/files/make_params/confi...
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build (dimred/umap, /home/runner/work/openpipeline/openpipeline/src/dimred/umap/config.vsh.yaml, ...
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build (filter/filter_with_hvg, /home/runner/work/openpipeline/openpipeline/src/filter/filter_with...
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build (filter/filter_with_scrublet, /home/runner/work/openpipeline/openpipeline/src/filter/filter...
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build (download/sync_test_resources, /home/runner/work/openpipeline/openpipeline/src/download/syn...
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build (filter/intersect_obs, /home/runner/work/openpipeline/openpipeline/src/filter/intersect_obs...
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build (integrate/harmonypy, /home/runner/work/openpipeline/openpipeline/src/integrate/harmonypy/c...
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build (integrate/scarches, /home/runner/work/openpipeline/openpipeline/src/integrate/scarches/con...
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build (filter/subset_h5mu, /home/runner/work/openpipeline/openpipeline/src/filter/subset_h5mu/con...
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build (integrate/scanorama, /home/runner/work/openpipeline/openpipeline/src/integrate/scanorama/c...
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build (integrate/scvi, /home/runner/work/openpipeline/openpipeline/src/integrate/scvi/config.vsh....
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build (interpret/lianapy, /home/runner/work/openpipeline/openpipeline/src/interpret/lianapy/confi...
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build (integrate/totalvi, /home/runner/work/openpipeline/openpipeline/src/integrate/totalvi/confi...
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build (interactive/run_cirrocumulus, /home/runner/work/openpipeline/openpipeline/src/interactive/...
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build (interactive/run_cellxgene, /home/runner/work/openpipeline/openpipeline/src/interactive/run...
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build (labels_transfer/knn, /home/runner/work/openpipeline/openpipeline/src/labels_transfer/knn/c...
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build (labels_transfer/xgboost, /home/runner/work/openpipeline/openpipeline/src/labels_transfer/x...
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build (process_10xh5/filter_10xh5, /home/runner/work/openpipeline/openpipeline/src/process_10xh5/...
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build (mapping/cellranger_multi, /home/runner/work/openpipeline/openpipeline/src/mapping/cellrang...
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build (qc/calculate_qc_metrics, /home/runner/work/openpipeline/openpipeline/src/qc/calculate_qc_m...
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build (mapping/htseq_count, /home/runner/work/openpipeline/openpipeline/src/mapping/htseq_count/c...
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build (mapping/cellranger_count_split, /home/runner/work/openpipeline/openpipeline/src/mapping/ce...
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build (qc/fastqc, /home/runner/work/openpipeline/openpipeline/src/qc/fastqc/config.vsh.yaml, /hom...
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build (qc/multiqc, /home/runner/work/openpipeline/openpipeline/src/qc/multiqc/config.vsh.yaml, /h...
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build (reference/build_bdrhap_reference, /home/runner/work/openpipeline/openpipeline/src/referenc...
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build (transform/clr, /home/runner/work/openpipeline/openpipeline/src/transform/clr/config.vsh.ya...
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build (reference/build_cellranger_reference, /home/runner/work/openpipeline/openpipeline/src/refe...
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build (reference/make_reference, /home/runner/work/openpipeline/openpipeline/src/reference/make_r...
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build (mapping/bd_rhapsody, /home/runner/work/openpipeline/openpipeline/src/mapping/bd_rhapsody/c...
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build (convert/velocyto_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/velocity/velocyt...
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build (mapping/multi_star, /home/runner/work/openpipeline/openpipeline/src/mapping/multi_star/con...
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build (mapping/htseq_count_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/mapping/htseq...
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build (mapping/cellranger_count, /home/runner/work/openpipeline/openpipeline/src/mapping/cellrang...
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build (genetic_demux/cellsnp, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/cells...
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build (mapping/samtools_sort, /home/runner/work/openpipeline/openpipeline/src/mapping/samtools_so...
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build (mapping/multi_star_to_h5mu, /home/runner/work/openpipeline/openpipeline/src/mapping/multi_...
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build (report/mermaid, /home/runner/work/openpipeline/openpipeline/src/report/mermaid/config.vsh....
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build (mapping/star_build_reference, /home/runner/work/openpipeline/openpipeline/src/mapping/star...
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build (transform/log1p, /home/runner/work/openpipeline/openpipeline/src/transform/log1p/config.vs...
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build (transform/normalize_total, /home/runner/work/openpipeline/openpipeline/src/transform/norma...
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build (transform/scale, /home/runner/work/openpipeline/openpipeline/src/transform/scaling/config....
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build (genetic_demux/dsc_pileup, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/ds...
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build (metadata/add_id, /home/runner/work/openpipeline/openpipeline/src/metadata/add_id/config.vs...
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build (transform/delete_layer, /home/runner/work/openpipeline/openpipeline/src/transform/delete_l...
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build (mapping/star_align_v273a, /home/runner/work/openpipeline/openpipeline/src/mapping/star_ali...
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build (transform/regress_out, /home/runner/work/openpipeline/openpipeline/src/transform/regress_o...
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build (metadata/move_obsm_to_obs, /home/runner/work/openpipeline/openpipeline/src/metadata/move_o...
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build (metadata/grep_annotation_column, /home/runner/work/openpipeline/openpipeline/src/metadata/...
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build (neighbors/bbknn, /home/runner/work/openpipeline/openpipeline/src/neighbors/bbknn/config.vs...
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build (metadata/join_uns_to_obs, /home/runner/work/openpipeline/openpipeline/src/metadata/join_un...
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build (transfer/publish, /home/runner/work/openpipeline/openpipeline/src/transfer/publish/config....
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build (neighbors/find_neighbors, /home/runner/work/openpipeline/openpipeline/src/neighbors/find_n...
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build (metadata/join_csv, /home/runner/work/openpipeline/openpipeline/src/metadata/join_csv/confi...
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build (genetic_demux/bcftools, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/bcft...
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build (query/cellxgene_census, /home/runner/work/openpipeline/openpipeline/src/query/cellxgene_ce...
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build (genetic_demux/scsplit, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/scspl...
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build (genetic_demux/samtools, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/samt...
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build (genetic_demux/vireo, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/vireo/c...
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build (velocity/scvelo, /home/runner/work/openpipeline/openpipeline/src/velocity/scvelo/config.vs...
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build (mapping/star_align, /home/runner/work/openpipeline/openpipeline/src/mapping/star_align/con...
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build (genetic_demux/souporcell, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/so...
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build (genetic_demux/demuxlet, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/demu...
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build (velocity/velocyto, /home/runner/work/openpipeline/openpipeline/src/velocity/velocyto/confi...
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build (genetic_demux/freemuxlet, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/fr...
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build (genetic_demux/freebayes, /home/runner/work/openpipeline/openpipeline/src/genetic_demux/fre...
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