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Update all nf-core/modules in pipeline #1909

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Update all nf-core/modules in pipeline

Update all nf-core/modules in pipeline #1909

Run time

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Job Run time
Run pipeline with test data (23.04.0)
20m 9s
Run pipeline with test data (latest-everything)
25m 42s
Test STAR Salmon with workflow parameters (--skip_qc)
20m 8s
Test STAR Salmon with workflow parameters (--skip_trimming)
20m 16s
Test HISAT2 with workflow parameters (--skip_qc)
11m 48s
Test STAR RSEM with workflow parameters (--skip_qc)
18m 35s
Test HISAT2 with workflow parameters (--hisat2_index false)
16m 21s
Test STAR Salmon with workflow parameters (--gtf false)
23m 43s
Test STAR RSEM with workflow parameters (--rsem_index false)
18m 14s
Test STAR Salmon with workflow parameters (--star_index false)
23m 56s
Test STAR Salmon with workflow parameters (--transcript_fasta false)
30m 26s
Test Salmon with workflow parameters (--skip_qc)
21m 33s
Test STAR Salmon with workflow parameters (--min_mapped_reads 90)
18m 58s
Test Salmon with workflow parameters (--skip_alignment --skip_pseudo_alignment)
7m 23s
Test STAR Salmon with workflow parameters (--with_umi)
22m 34s
Test STAR Salmon with workflow parameters (--with_umi --skip_trimming)
22m 0s
Test Salmon with workflow parameters (--salmon_index false --transcript_fasta false)
20m 41s
Test STAR Salmon with workflow parameters (--remove_ribo_rna --skip_qualimap)
49m 32s
Test STAR Salmon with workflow parameters (--bam_csi_index)
18m 52s
Test STAR Salmon with workflow parameters (--save_align_intermeds --save_reference)
20m 44s
Test STAR Salmon with workflow parameters (--featurecounts_group_type false)
20m 28s
Test STAR Salmon with workflow parameters (--trimmer fastp)
18m 14s
7h 50m 17s