diff --git a/workflows/call_wf.nf b/workflows/call_wf.nf index 77d33382..b615a739 100644 --- a/workflows/call_wf.nf +++ b/workflows/call_wf.nf @@ -137,12 +137,12 @@ workflow CALL_WF { UTILS_SAMPLE_STATS(sample_stats_ch) - UTILS_COHORT_STATS(UTILS_SAMPLE_STATS.out.collect(sort:true)) + UTILS_COHORT_STATS(UTILS_SAMPLE_STATS.out.collect()) emit: cohort_stats_tsv = UTILS_COHORT_STATS.out - gvcf_ch = GATK_HAPLOTYPE_CALLER.out.gvcf_ch.collect(sort:true) + gvcf_ch = GATK_HAPLOTYPE_CALLER.out.gvcf_ch.collect() reformatted_lofreq_vcfs_tuple_ch = GATK_INDEX_FEATURE_FILE__LOFREQ.out.vcf_tuple.collect(sort:true) - bgzip_ch = BGZIP__LOFREQ.out.collect(sort:true) + bgzip_ch = BGZIP__LOFREQ.out.collect() samtools_bam_ch = SAMTOOLS_INDEX.out }