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Fix for hidden output docs #580

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Fix for hidden output docs

Fix for hidden output docs #580

Run time

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Job Run time
Run standard pipeline test (edge version)
5m 4s
Run extended pipeline test (23.04.0)
10m 49s
Run extended pipeline test
10m 48s
Run standard pipeline test (23.04.0)
4m 58s
Run standard pipeline test
4m 47s
23.04.0 test_genome_options
3m 28s
23.04.0 test_genome_options_spikein
5m 33s
23.04.0 test_samplesheet
9m 36s
23.04.0 test_samplesheet_2
2m 36s
23.04.0 test_samplesheet_3
47s
23.04.0 test_filtering_noqfilter
3m 4s
23.04.0 test_filtering_withqfilter
3m 40s
23.04.0 test_bam_scale_none
2m 33s
23.04.0 test_bam_scale_spikein
2m 29s
23.04.0 test_bam_scale_cpm
3m 8s
23.04.0 test_bam_scale_rpkm
2m 46s
23.04.0 test_bam_scale_bpm
2m 58s
23.04.0 test_bam_scale_cpm_iggscale
2m 45s
23.04.0 test_peak_callers_seacr
4m 43s
23.04.0 test_peak_callers_macs2
6m 50s
23.04.0 test_peak_callers_invalid
36s
23.04.0 test_peak_callers_seacr_macs2
2m 43s
23.04.0 test_peak_callers_macs2_seacr
2m 34s
23.04.0 test_peak_callers_seacr_macs2_noigg
2m 14s
23.04.0 test_peak_callers_ctrl_tests
5m 10s
23.04.0 test_consensus_peaks_group
4m 13s
23.04.0 test_consensus_peaks_all
4m 22s
23.04.0 test_consensus_peaks_invalid
27s
23.04.0 verify_output_only_input
44s
23.04.0 verify_output_save_merged
1m 52s
23.04.0 verify_output_save_trimmed
2m 3s
23.04.0 verify_output_skip_trimming
1m 12s
23.04.0 verify_output_skip_fastqc
1m 43s
23.04.0 verify_output_save_ref
1m 13s
23.04.0 verify_output_align_only_align
2m 51s
23.04.0 verify_output_align_only_align_end_to_end
2m 5s
23.04.0 verify_output_align_only_align_local
2m 8s
23.04.0 verify_output_align_intermed
2m 55s
23.04.0 verify_output_align_save_spikein_align
2m 4s
23.04.0 verify_output_align_save_unaligned
2m 19s
23.04.0 verify_output_align_duplicates_mark
21m 35s
23.04.0 verify_output_align_duplicates_remove
2m 57s
23.04.0 verify_output_align_duplicates_remove_target
2m 56s
23.04.0 verify_output_align_linear_duplicates_remove
2m 54s
23.04.0 verify_output_align_linear_duplicates_remove_target
3m 1s
23.04.0 verify_output_only_filtering
4m 48s
23.04.0 verify_output_only_filtering_with_mitochondrial_reads
2m 29s
23.04.0 verify_output_only_filtering_without_mitochondrial_reads
2m 27s
23.04.0 verify_output_only_filtering_without_mitochondrial_reads_mito_name_null
2m 30s
23.04.0 verify_output_peak_calling_only_peak_calling
5m 42s
23.04.0 verify_output_reporting_skip_preseq_false
3m 49s
23.04.0 verify_output_reporting_skip_preseq_true
4m 5s
23.04.0 verify_output_reporting_skip_dtqc_false
10m 27s
23.04.0 verify_output_reporting_skip_dtqc_true
9m 36s
23.04.0 verify_output_reporting_skip_heatmaps_false
4m 10s
23.04.0 verify_output_reporting_skip_heatmaps_true
3m 15s
23.04.0 verify_output_reporting_skip_heatmaps_grouped
4m 18s
23.04.0 verify_output_reporting_skip_igv_false
4m 16s
23.04.0 verify_output_reporting_skip_igv_true
4m 52s
23.04.0 verify_output_reporting_skip_multiqc_false
4m 29s
23.04.0 verify_output_reporting_skip_multiqc_true
5m 14s
23.04.0 verify_output_reporting_skip_peak_qc_false
4m 26s
23.04.0 verify_output_reporting_skip_peak_qc_true
4m 51s
23.04.0 verify_output_reporting_skip_reporting
3m 29s
test_genome_options
3m 3s
test_genome_options_spikein
4m 58s
test_samplesheet
9m 57s
test_samplesheet_2
3m 8s
test_samplesheet_3
44s
test_filtering_noqfilter
2m 58s
test_filtering_withqfilter
3m 13s
test_bam_scale_none
2m 19s
test_bam_scale_spikein
2m 25s
test_bam_scale_cpm
3m 9s
test_bam_scale_rpkm
2m 33s
test_bam_scale_bpm
2m 27s
test_bam_scale_cpm_iggscale
3m 4s
test_peak_callers_seacr
4m 30s
test_peak_callers_macs2
6m 37s
test_peak_callers_invalid
45s
test_peak_callers_seacr_macs2
2m 51s
test_peak_callers_macs2_seacr
2m 15s
test_peak_callers_seacr_macs2_noigg
2m 25s
test_peak_callers_ctrl_tests
5m 32s
test_consensus_peaks_group
4m 8s
test_consensus_peaks_all
4m 30s
test_consensus_peaks_invalid
37s
verify_output_only_input
42s
verify_output_save_merged
1m 37s
verify_output_save_trimmed
1m 45s
verify_output_skip_trimming
1m 36s
verify_output_skip_fastqc
1m 35s
verify_output_save_ref
54s
verify_output_align_only_align
2m 55s
verify_output_align_only_align_end_to_end
1m 54s
verify_output_align_only_align_local
2m 3s
verify_output_align_intermed
2m 56s
verify_output_align_save_spikein_align
1m 49s
verify_output_align_save_unaligned
1m 51s
verify_output_align_duplicates_mark
2m 26s
verify_output_align_duplicates_remove
2m 51s
verify_output_align_duplicates_remove_target
2m 43s
verify_output_align_linear_duplicates_remove
3m 7s
verify_output_align_linear_duplicates_remove_target
3m 12s
verify_output_only_filtering
5m 1s
verify_output_only_filtering_with_mitochondrial_reads
2m 44s
verify_output_only_filtering_without_mitochondrial_reads
2m 41s
verify_output_only_filtering_without_mitochondrial_reads_mito_name_null
2m 18s
verify_output_peak_calling_only_peak_calling
4m 54s
verify_output_reporting_skip_preseq_false
3m 30s
verify_output_reporting_skip_preseq_true
3m 49s
verify_output_reporting_skip_dtqc_false
10m 45s
verify_output_reporting_skip_dtqc_true
9m 34s
verify_output_reporting_skip_heatmaps_false
4m 12s
verify_output_reporting_skip_heatmaps_true
3m 3s
verify_output_reporting_skip_heatmaps_grouped
3m 34s
verify_output_reporting_skip_igv_false
4m 4s
verify_output_reporting_skip_igv_true
4m 24s
verify_output_reporting_skip_multiqc_false
4m 47s
verify_output_reporting_skip_multiqc_true
4m 6s
verify_output_reporting_skip_peak_qc_false
4m 26s
verify_output_reporting_skip_peak_qc_true
4m 32s
verify_output_reporting_skip_reporting
2m 48s
7h 40m 42s