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Revert "Update FastQC and UMItools modules" #2097

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Revert "Update FastQC and UMItools modules"

Revert "Update FastQC and UMItools modules" #2097

Run time

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Job Run time
Test HISAT2 with workflow parameters (--skip_qc)
5m 58s
Test HISAT2 with workflow parameters (--hisat2_index false)
8m 5s
Test Pseudoaligners with workflow parameters (--pseudo_aligner salmon --skip_qc)
7m 56s
Test STAR RSEM with workflow parameters (--skip_qc)
7m 22s
Test Pseudoaligners with workflow parameters (--pseudo_aligner salmon --skip_alignment --skip_pse...
3m 46s
Test STAR RSEM with workflow parameters (--rsem_index false)
9m 52s
Test Pseudoaligners with workflow parameters (--pseudo_aligner salmon --salmon_index false --tran...
10m 38s
Test Pseudoaligners with workflow parameters (--pseudo_aligner kallisto --skip_qc)
8m 31s
Test STAR Salmon with workflow parameters (--skip_qc)
8m 1s
Test Pseudoaligners with workflow parameters (--pseudo_aligner kallisto --skip_alignment --skip_p...
3m 47s
Run pipeline with test data (23.04.0)
11m 14s
Test STAR Salmon with workflow parameters (--skip_trimming)
10m 43s
Test Pseudoaligners with workflow parameters (--pseudo_aligner kallisto --kallisto_index false --...
10m 51s
Test STAR Salmon with workflow parameters (--gtf false)
10m 40s
Run pipeline with test data (latest-everything)
10m 48s
Test STAR Salmon with workflow parameters (--star_index false)
10m 39s
Test STAR Salmon with workflow parameters (--transcript_fasta false)
10m 41s
Test STAR Salmon with workflow parameters (--min_mapped_reads 90)
10m 9s
Test STAR Salmon with workflow parameters (--with_umi)
10m 34s
Test STAR Salmon with workflow parameters (--with_umi --skip_trimming)
10m 22s
Test STAR Salmon with workflow parameters (--remove_ribo_rna --skip_qualimap)
10m 41s
Test STAR Salmon with workflow parameters (--bam_csi_index)
10m 41s
Test STAR Salmon with workflow parameters (--save_align_intermeds --save_reference)
10m 38s
Test STAR Salmon with workflow parameters (--featurecounts_group_type false)
10m 41s
Test STAR Salmon with workflow parameters (--trimmer fastp)
10m 7s
3h 53m 25s