Hi all! I am test-running a pair of tumor-normal TCGA WES samples, and the process has been stuck at STRELKA SOMATIC for over 24 hours (it shows 99% for over 10-ish hours). There is no error message, and the pipeline continues running. However, I believe for TCGA WES, one pair should perhaps take less than 10 hours. I have tried several times with v3.7.0 or v3.5.0, but all ended up being stuck at the Strelka2 process. System: Slurm 23.02.7 Sarek version: 3.7.0 Memory and threads allocated: entire node with 64 threads, 1 T memory. Command executed:

export TMPDIR=${tmp}/temp_F1_Sarek

NXF_OPTS='-Xms1g -Xmx4g'

nextflow run nf-core/sarek -r 3.7.0 -profile conda \
--input ./samplesheet.csv --step mapping --outdir ./results \
--aligner bwa-mem2 --genome GATK.GRCh38 \
--tools mutect2,strelka -c nextflow.config -with-report --dbsnp ${database}/GRCh38/resources_broad_hg38_v0_Homo_sapiens_assembly38.dbsnp138.vcf --known_indels ${database}/GRCh38/Homo_sapiens_assembly38.known_indels.vcf.gz --pon ${database}/GRCh38/PON.sorted.vcf.gz --pon_tbi${database}/GRCh38/PON.sorted.vcf.gz.tbi --germline_resource${database}/GRCh38/af-only-gnomad.hg38.vcf.gz --wes --intervals ${database}/GRCh38/GRCh38_exome.bed --only_paired_variant_calling

I wonder if anyone experience sth similar, thanks!