Build

Set `.var` index names in `from_h5ad_to_h5mu` (#1184) #1401

Run time

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Job	Run time
Build and push target folder	4m 23s
scanvi - annotate - Build and push docker image	4m 37s
celltypist - annotate - Build and push docker image	5m 30s
onclass - annotate - Build and push docker image	9m 20s
consensus_vote - annotate - Build and push docker image	1m 28s
popv - annotate - Build and push docker image	8m 24s
random_forest_annotation - annotate - Build and push docker image	3m 13s
from_cellranger_multi_to_h5mu - convert - Build and push docker image	3m 32s
from_bd_to_10x_molecular_barcode_tags - convert - Build and push docker image	2m 14s
from_h5ad_to_seurat - convert - Build and push docker image	3m 11s
svm_annotation - annotate - Build and push docker image	3m 37s
merge - dataflow - Build and push docker image	1m 35s
tar_extract - compression - Build and push docker image	1m 50s
from_10xmtx_to_h5mu - convert - Build and push docker image	2m 5s
from_10xh5_to_h5mu - convert - Build and push docker image	2m 47s
from_h5mu_to_h5ad - convert - Build and push docker image	1m 58s
from_tiledb_to_h5mu - convert - Build and push docker image	3m 5s
singler - annotate - Build and push docker image	2m 37s
from_h5mu_or_h5ad_to_tiledb - convert - Build and push docker image	3m 58s
from_seurat_to_h5mu - convert - Build and push docker image	4m 7s
concatenate_h5mu - dataflow - Build and push docker image	1m 48s
leiden - cluster - Build and push docker image	2m 2s
from_h5mu_or_h5ad_to_seurat - convert - Build and push docker image	2m 27s
split_h5mu - dataflow - Build and push docker image	2m 25s
from_h5mu_to_seurat - convert - Build and push docker image	3m 30s
cellbender_remove_background - correction - Build and push docker image	9m 56s
from_bdrhap_to_h5mu - convert - Build and push docker image	1m 51s
from_h5ad_to_h5mu - convert - Build and push docker image	2m 2s
bcl2fastq - demux - Build and push docker image	1m 42s
split_modalities - dataflow - Build and push docker image	2m 46s
tsne - dimred - Build and push docker image	2m 42s
lsi - dimred - Build and push docker image	2m 58s
bcl_convert - demux - Build and push docker image	1m 12s
cellranger_mkfastq - demux - Build and push docker image	4m 25s
deseq2 - differential_expression - Build and push docker image	3m 7s
cellranger_atac_mkfastq - demux - Build and push docker image	2m 59s
densmap - dimred - Build and push docker image	2m 53s
filter_with_scrublet - filter - Build and push docker image	3m 39s
filter_with_counts - filter - Build and push docker image	3m 52s
compress_h5mu - compression - Build and push docker image	2m 40s
download_file - download - Build and push docker image	2m 2s
filter_with_pattern - filter - Build and push docker image	2m 47s
harmonypy - integrate - Build and push docker image	2m 20s
score_genes_scanpy - feature_annotation - Build and push docker image	3m 38s
scsplit - genetic_demux - Build and push docker image	2m 55s
delimit_fraction - filter - Build and push docker image	1m 46s
intersect_obs - filter - Build and push docker image	2m 24s
highly_variable_features_scanpy - feature_annotation - Build and push docker image	2m 57s
souporcell - genetic_demux - Build and push docker image	3m 19s
remove_modality - filter - Build and push docker image	2m 7s
dsc_pileup - genetic_demux - Build and push docker image	4m 48s
demuxlet - genetic_demux - Build and push docker image	8m 57s
do_filter - filter - Build and push docker image	1m 30s
bcftools - genetic_demux - Build and push docker image	3m 40s
cellsnp - genetic_demux - Build and push docker image	3m 47s
freemuxlet - genetic_demux - Build and push docker image	8m 10s
pca - dimred - Build and push docker image	2m 6s
make_params - files - Build and push docker image	2m 25s
filter_with_quantile - filter - Build and push docker image	1m 40s
subset_h5mu - filter - Build and push docker image	2m 42s
freebayes - genetic_demux - Build and push docker image	2m 3s
totalvi_scarches - integrate - Build and push docker image	4m 52s
samtools - genetic_demux - Build and push docker image	2m 18s
subset_obsp - filter - Build and push docker image	2m 3s
xgboost - labels_transfer - Build and push docker image	3m 19s
htseq_count_to_h5mu - mapping - Build and push docker image	2m 51s
bd_rhapsody - mapping - Build and push docker image	2m 34s
umap - dimred - Build and push docker image	6m 2s
star_align - mapping - Build and push docker image	3m 37s
align_query_reference - feature_annotation - Build and push docker image	1m 24s
samtools_sort - mapping - Build and push docker image	1m 51s
score_genes_cell_cycle_scanpy - feature_annotation - Build and push docker image	2m 30s
create_pseudobulk - differential_expression - Build and push docker image	3m 17s
cellmapper - labels_transfer - Build and push docker image	3m 38s
htseq_count - mapping - Build and push docker image	2m 17s
delimit_counts - filter - Build and push docker image	1m 32s
cellranger_count - mapping - Build and push docker image	3m 12s
lianapy - interpret - Build and push docker image	3m 12s
cellranger_atac_count - mapping - Build and push docker image	3m 6s
cellranger_multi - mapping - Build and push docker image	3m 42s
multi_star_to_h5mu - mapping - Build and push docker image	2m 46s
totalvi - integrate - Build and push docker image	4m 28s
scarches - integrate - Build and push docker image	5m 22s
scanorama - integrate - Build and push docker image	3m 14s
star_align_v273a - mapping - Build and push docker image	2m 45s
multiqc - qc - Build and push docker image	3m 49s
multi_star - mapping - Build and push docker image	4m 50s
add_id - metadata - Build and push docker image	2m 14s
bbknn - neighbors - Build and push docker image	3m 24s
move_obsm_to_obs - metadata - Build and push docker image	2m 43s
cellxgene_census - query - Build and push docker image	3m 48s
join_csv - metadata - Build and push docker image	2m 44s
clear_slots - transform - Build and push docker image	2m 5s
tiledb_healthcheck - query - Build and push docker image	2m 38s
build_cellranger_arc_reference - reference - Build and push docker image	2m 29s
vireo - genetic_demux - Build and push docker image	3m 3s
filter_10xh5 - process_10xh5 - Build and push docker image	4m 40s
find_neighbors - neighbors - Build and push docker image	2m 55s
join_uns_to_obs - metadata - Build and push docker image	2m 18s
build_star_reference - reference - Build and push docker image	3m 55s
scvi - integrate - Build and push docker image	4m 45s
build_cellranger_reference - reference - Build and push docker image	2m 20s
build_bdrhap_reference - reference - Build and push docker image	1m 54s
cellranger_count_split - mapping - Build and push docker image	2m 4s
calculate_atac_qc_metrics - qc - Build and push docker image	2m 28s
normalize_total - transform - Build and push docker image	2m 14s
move_mudata_obsm_to_tiledb - tiledb - Build and push docker image	3m 18s
clr - transform - Build and push docker image	3m 6s
calculate_qc_metrics - qc - Build and push docker image	2m 54s
bpcells_regress_out - transform - Build and push docker image	11m 28s
knn - labels_transfer - Build and push docker image	2m 10s
scvelo - velocity - Build and push docker image	3m 15s
grep_annotation_column - metadata - Build and push docker image	2m 34s
velocyto_to_h5mu - convert - Build and push docker image	4m 20s
mermaid - report - Build and push docker image	5m 50s
move_mudata_obs_to_tiledb - tiledb - Build and push docker image	2m 58s
log1p - transform - Build and push docker image	2m 30s
cellranger_mkgtf - reference - Build and push docker image	2m 6s
fastqc - qc - Build and push docker image	2m 11s
move_layer - transform - Build and push docker image	3m 20s
make_reference - reference - Build and push docker image	1m 4s
regress_out - transform - Build and push docker image	5m 2s
tfidf - transform - Build and push docker image	2m 40s
scale - transform - Build and push docker image	5m 0s
velocyto - velocity - Build and push docker image	3m 8s
delete_layer - transform - Build and push docker image	2m 38s
move_mudata_obsp_to_tiledb - tiledb - Build and push docker image	3m 30s
	6h 56m 44s

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Set `.var` index names in `from_h5ad_to_h5mu` (#1184) #1401

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Set `.var` index names in `from_h5ad_to_h5mu` (#1184) #1401

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Run time

Set .var index names in from_h5ad_to_h5mu (#1184) #1401

Usage

Run time

Set `.var` index names in `from_h5ad_to_h5mu` (#1184) #1401