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Merge pull request #1231 from maxulysse/sortmerna #28

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Merge pull request #1231 from maxulysse/sortmerna

Merge pull request #1231 from maxulysse/sortmerna #28

Run time

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Job Run time
Test HISAT2 with workflow parameters
0s
Test Pseudoaligners with workflow parameters
0s
Check for changes
8s
Test STAR RSEM with workflow parameters
0s
Test STAR Salmon with workflow parameters
0s
SORTMERNA docker NF-23.04.0
2m 5s
CAT_FASTQ docker NF-23.04.0
1m 16s
SALMON_INDEX docker NF-23.04.0
54s
FASTQ_FASTQC_UMITOOLS_TRIMGALORE docker NF-23.04.0
1m 36s
STRINGTIE_STRINGTIE docker NF-23.04.0
1m 6s
KALLISTO_QUANT docker NF-23.04.0
1m 15s
UNTAR docker NF-23.04.0
5m 14s
SAMTOOLS_FLAGSTAT docker NF-23.04.0
32s
MULTIQC docker NF-23.04.0
2m 20s
HISAT2_ALIGN docker NF-23.04.0
1m 21s
HISAT2_EXTRACTSPLICESITES docker NF-23.04.0
43s
RSEQC_INFEREXPERIMENT docker NF-23.04.0
45s
BAM_STATS_SAMTOOLS docker NF-23.04.0
2m 40s
FASTQ_ALIGN_HISAT2 docker NF-23.04.0
1m 27s
SAMTOOLS_STATS docker NF-23.04.0
1m 7s
BAM_DEDUP_STATS_SAMTOOLS_UMITOOLS docker NF-23.04.0
1m 2s
TXIMETA_TXIMPORT docker NF-23.04.0
1m 32s
UTILS_NEXTFLOW_PIPELINE docker NF-23.04.0
1m 3s
GUNZIP docker NF-23.04.0
48s
UTILS_NFCORE_PIPELINE docker NF-23.04.0
1m 14s
CUSTOM_CATADDITIONALFASTA docker NF-23.04.0
40s
CUSTOM_GETCHROMSIZES docker NF-23.04.0
53s
TRIMGALORE docker NF-23.04.0
2m 0s
UCSC_BEDGRAPHTOBIGWIG docker NF-23.04.0
53s
FASTQC docker NF-23.04.0
3m 19s
FASTQ_FASTQC_UMITOOLS_FASTP docker NF-23.04.0
58s
BAM_RSEQC docker NF-23.04.0
1m 14s
STAR_ALIGN docker NF-23.04.0
8m 44s
BBMAP_BBSPLIT docker NF-23.04.0
1m 25s
RSEQC_READDUPLICATION docker NF-23.04.0
49s
RSEQC_READDISTRIBUTION docker NF-23.04.0
52s
HISAT2_BUILD docker NF-23.04.0
1m 53s
PICARD_MARKDUPLICATES docker NF-23.04.0
1m 50s
RSEM_PREPAREREFERENCE docker NF-23.04.0
56s
UMITOOLS_EXTRACT docker NF-23.04.0
1m 51s
BAM_SORT_STATS_SAMTOOLS docker NF-23.04.0
59s
UCSC_BEDCLIP docker NF-23.04.0
51s
PIPELINE docker NF-23.04.0
10m 23s
SAMTOOLS_SORT docker NF-23.04.0
51s
BEDGRAPH_BEDCLIP_BEDGRAPHTOBIGWIG docker NF-23.04.0
43s
SAMTOOLS_INDEX docker NF-23.04.0
1m 4s
RSEQC_JUNCTIONANNOTATION docker NF-23.04.0
46s
PRESEQ_LCEXTRAP docker NF-23.04.0
47s
SALMON_QUANT docker NF-23.04.0
1m 17s
UMITOOLS_DEDUP docker NF-23.04.0
1m 29s
FASTQ_SUBSAMPLE_FQ_SALMON docker NF-23.04.0
1m 26s
FQ_SUBSAMPLE docker NF-23.04.0
1m 32s
RSEQC_TIN docker NF-23.04.0
55s
RSEM_CALCULATEEXPRESSION docker NF-23.04.0
2m 34s
UTILS_NFVALIDATION_PLUGIN docker NF-23.04.0
49s
KALLISTO_INDEX docker NF-23.04.0
43s
GFFREAD docker NF-23.04.0
2m 20s
SUMMARIZEDEXPERIMENT_SUMMARIZEDEXPERIMENT docker NF-23.04.0
3m 50s
BAM_MARKDUPLICATES_PICARD docker NF-23.04.0
1m 18s
RSEQC_INNERDISTANCE docker NF-23.04.0
56s
SAMTOOLS_IDXSTATS docker NF-23.04.0
37s
RSEQC_BAMSTAT docker NF-23.04.0
1m 18s
QUALIMAP_RNASEQ docker NF-23.04.0
59s
FASTP docker NF-23.04.0
2m 47s
UMITOOLS_PREPAREFORRSEM docker NF-23.04.0
51s
RSEQC_JUNCTIONSATURATION docker NF-23.04.0
55s
CUSTOM_TX2GENE docker NF-23.04.0
56s
SUBREAD_FEATURECOUNTS docker NF-23.04.0
1m 7s
STAR_GENOMEGENERATE docker NF-23.04.0
1m 18s
confirm-pass
1s
1h 44m 47s