DAY-EC activated.
DAY-EC activated.
    reason: Missing output files: results/day/hg38_broad/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA.ug.na.alignstats.json; Input files updated by another job: results/day/hg38_broad/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA.ug.na.cram.crai, results/day/hg38_broad/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA.ug.na.cram
    wildcards: sample=505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA, alnr=ug, ddup=na
    threads: 96
    resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, tmpdir=<TBD>, threads=96, time=5440, partition=i192,i192mem,i128, vcpu=96, distribution=block, exclusive=, constraint=, exclude=, include=, attempt_n=1

resources/alignstats/alignstats  -C -U  -i results/day/hg38_broad/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA.ug.na.cram -T /fsx/data/genomic_data/organism_references/H_sapiens/hg38_broad/Homo_sapiens_assembly38.fasta -o results/day/hg38_broad/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA.ug.na.alignstats.json  -j cram -v -P 96 -p 96 > results/day/hg38_broad/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11090-Z0867-CTCATGGCATGAGCAGAT-prod-cram-3-CTCATGGCATGAGCAGAT-PF-UG-ULTIMA.ug.na.alignstats.log;
Submitted job 12 with external jobid '1900'.
[Sat Apr 25 09:08:45 2026]
Finished job 29.
29 of 67 steps (43%) done
[Sat Apr 25 09:08:45 2026]
Finished job 41.
30 of 67 steps (45%) done
[Sat Apr 25 09:08:45 2026]
Finished job 17.
31 of 67 steps (46%) done
[Sat Apr 25 09:08:45 2026]
Finished job 49.
32 of 67 steps (48%) done
Select jobs to execute...

[Sat Apr 25 09:08:45 2026]
rule alignstats:
    input: results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.cram.crai
    output: results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.alignstats.json
    log: results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.alignstats.log
    jobid: 28
    benchmark: results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/benchmarks/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.alignstats.bench.tsv
    reason: Missing output files: results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.alignstats.json; Input files updated by another job: results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.cram.crai
    wildcards: sample=505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA, alnr=ug, ddup=na
    threads: 96
    resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, tmpdir=<TBD>, threads=96, time=5440, partition=i192,i192mem,i128, vcpu=96, distribution=block, exclusive=, constraint=, exclude=, include=, attempt_n=1

resources/alignstats/alignstats  -C -U  -i results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.cram -T /fsx/data/genomic_data/organism_references/H_sapiens/hg38_broad/Homo_sapiens_assembly38.fasta -o results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.alignstats.json  -j cram -v -P 96 -p 96 > results/day/hg38_broad/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11094-Z0871-CTTAGCGCATCGAT-prod-cram-7-CTTAGCGCATCGAT-PF-UG-ULTIMA.ug.na.alignstats.log;
Submitted job 28 with external jobid '1901'.

[Sat Apr 25 09:08:45 2026]
rule alignstats:
    input: results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.cram.crai
    output: results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.alignstats.json
    log: results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.alignstats.log
    jobid: 48
    benchmark: results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/benchmarks/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.alignstats.bench.tsv
    reason: Missing output files: results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.alignstats.json; Input files updated by another job: results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.cram.crai
    wildcards: sample=505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA, alnr=ug, ddup=na
    threads: 96
    resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, tmpdir=<TBD>, threads=96, time=5440, partition=i192,i192mem,i128, vcpu=96, distribution=block, exclusive=, constraint=, exclude=, include=, attempt_n=1

resources/alignstats/alignstats  -C -U  -i results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.cram -T /fsx/data/genomic_data/organism_references/H_sapiens/hg38_broad/Homo_sapiens_assembly38.fasta -o results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.alignstats.json  -j cram -v -P 96 -p 96 > results/day/hg38_broad/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11099-Z0876-CAATGCTGCTCATGCGAT-prod-cram-12-CAATGCTGCTCATGCGAT-PF-UG-ULTIMA.ug.na.alignstats.log;
Submitted job 48 with external jobid '1902'.

[Sat Apr 25 09:08:45 2026]
rule alignstats:
    input: results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.cram.crai
    output: results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.alignstats.json
    log: results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.alignstats.log
    jobid: 40
    benchmark: results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/benchmarks/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.alignstats.bench.tsv
    reason: Missing output files: results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.alignstats.json; Input files updated by another job: results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.cram.crai, results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.cram
    wildcards: sample=505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA, alnr=ug, ddup=na
    threads: 96
    resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, tmpdir=<TBD>, threads=96, time=5440, partition=i192,i192mem,i128, vcpu=96, distribution=block, exclusive=, constraint=, exclude=, include=, attempt_n=1

resources/alignstats/alignstats  -C -U  -i results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.cram -T /fsx/data/genomic_data/organism_references/H_sapiens/hg38_broad/Homo_sapiens_assembly38.fasta -o results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.alignstats.json  -j cram -v -P 96 -p 96 > results/day/hg38_broad/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11097-Z0874-CTTACATGTGCGAT-prod-cram-10-CTTACATGTGCGAT-PF-UG-ULTIMA.ug.na.alignstats.log;
Submitted job 40 with external jobid '1903'.

[Sat Apr 25 09:08:45 2026]
rule alignstats:
    input: results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.cram.crai
    output: results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.alignstats.json
    log: results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.alignstats.log
    jobid: 16
    benchmark: results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/benchmarks/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.alignstats.bench.tsv
    reason: Missing output files: results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.alignstats.json; Input files updated by another job: results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.cram, results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.cram.crai
    wildcards: sample=505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA, alnr=ug, ddup=na
    threads: 96
    resources: mem_mb=3000, mem_mib=2862, disk_mb=1000, disk_mib=954, tmpdir=<TBD>, threads=96, time=5440, partition=i192,i192mem,i128, vcpu=96, distribution=block, exclusive=, constraint=, exclude=, include=, attempt_n=1

resources/alignstats/alignstats  -C -U  -i results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.cram -T /fsx/data/genomic_data/organism_references/H_sapiens/hg38_broad/Homo_sapiens_assembly38.fasta -o results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.alignstats.json  -j cram -v -P 96 -p 96 > results/day/hg38_broad/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA/align/ug/na/alignqc/alignstats/logs/505064-20260331-2020-L11091-Z0868-CATGAGTCAGATTGAT-prod-cram-4-CATGAGTCAGATTGAT-PF-UG-ULTIMA.ug.na.alignstats.log;
Submitted job 16 with external jobid '1904'.
